BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy16472
(630 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|BB Chain b, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 403
Score = 366 bits (940), Expect = e-101, Method: Compositional matrix adjust.
Identities = 175/265 (66%), Positives = 205/265 (77%), Gaps = 36/265 (13%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRKFSAPRHGS+GF P+KRS+RHRGKVK FPKDD +KPVHLTAF+GYKAGMTHIVRE D
Sbjct: 2 SHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDSSKPVHLTAFLGYKAGMTHIVREVD 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
RPGSK+NKKE+VEAVTI+ETPPMVIVG++GYVETP GLR+FKT++AEH+S EC+RRFYKN
Sbjct: 62 RPGSKVNKKEVVEAVTIVETPPMVIVGIVGYVETPRGLRTFKTIFAEHISDECKRRFYKN 121
Query: 159 WYKSRQKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXT 218
W+KS++KAFTK KKWQD GKK + +D M KYC+VIRVIAHT
Sbjct: 122 WHKSKKKAFTKYCKKWQDADGKKQLERDFSSMKKYCQVIRVIAHT--------------- 166
Query: 219 KDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPI 278
QM+LL RQKKAHLME+Q+NGG+VA+K+ WAR+ LEQ +
Sbjct: 167 ---------------------QMRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQV 205
Query: 279 PVGQVFAQDEMIDCIGVTKGKGFKG 303
PV QVF QDEMID IGVTKGKG+KG
Sbjct: 206 PVSQVFGQDEMIDVIGVTKGKGYKG 230
Score = 197 bits (501), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 91/131 (69%), Positives = 106/131 (80%)
Query: 308 MKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXX 367
M+LL RQKKAHLME+Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID I
Sbjct: 168 MRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKG 227
Query: 368 XXXXXSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRM 427
SRWHTKKLPRKTH+GLRKVACIGAWHP+RV F+VARAGQKGYHHRTE+NKKIY++
Sbjct: 228 YKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKI 287
Query: 428 GAGIHTKDGKV 438
G G KDGK+
Sbjct: 288 GQGYLIKDGKL 298
Score = 179 bits (453), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 85/126 (67%), Positives = 100/126 (79%), Gaps = 7/126 (5%)
Query: 430 GIHTKDGKVSVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTE- 488
G+ G VTSRWHTKKLPRKTH+GLRKVACIGAWHP+RV F+VARAGQKGYHHRTE
Sbjct: 221 GVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEI 280
Query: 489 ---LFLCKKKYL---SMVIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGP 542
++ + YL +IKNNASTDYDL++KSI P+GGF HYGEV NDF+M+KGC +G
Sbjct: 281 NKKIYKIGQGYLIKDGKLIKNNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGT 340
Query: 543 KKRVIT 548
KKRV+T
Sbjct: 341 KKRVLT 346
Score = 91.7 bits (226), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/87 (51%), Positives = 56/87 (64%), Gaps = 2/87 (2%)
Query: 527 EVNNDFLMIKGCCMGPKKRVITXXXXXXXXXXXXXAHLMEIQLNGGSVADKIAWARQHLE 586
++ DF +K C RVI AHLME+Q+NGG+VA+K+ WAR+ LE
Sbjct: 145 QLERDFSSMKKYCQVI--RVIAHTQMRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLE 202
Query: 587 QPIPVGQVFAQDEMIDCIGVTKGKGFK 613
Q +PV QVF QDEMID IGVTKGKG+K
Sbjct: 203 QQVPVSQVFGQDEMIDVIGVTKGKGYK 229
>pdb|3IZR|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 389
Score = 298 bits (762), Expect = 8e-81, Method: Compositional matrix adjust.
Identities = 148/265 (55%), Positives = 185/265 (69%), Gaps = 35/265 (13%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRKF PRHGS+GF P+KR +RHRGKVK FPKDD KP HLTAF+GYKAGMTHIVRE +
Sbjct: 2 SHRKFEHPRHGSLGFLPRKRCSRHRGKVKSFPKDDQQKPCHLTAFLGYKAGMTHIVREVE 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
+PGSK++KKE EAVTI+ETPP+VIVG++ YV+TP GLR+ +VWA+HLS++ RRRFYKN
Sbjct: 62 KPGSKLHKKETCEAVTIIETPPLVIVGLVAYVKTPRGLRTLNSVWAQHLSEDVRRRFYKN 121
Query: 159 WYKSRQKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXT 218
W KS++KAFTK + K+ GKK I L KM KY ++RVIAHT
Sbjct: 122 WCKSKKKAFTKYALKYDSDAGKKEIQLQLEKMKKYATIVRVIAHTQIR------------ 169
Query: 219 KDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPI 278
+MK LK QKKAHLMEIQ+NGG++ADK+ + + E+ +
Sbjct: 170 ---------------------KMKGLK--QKKAHLMEIQVNGGTIADKVDYGYKFFEKEV 206
Query: 279 PVGQVFAQDEMIDCIGVTKGKGFKG 303
PV VF +DEM+D IGVTKGKG++G
Sbjct: 207 PVEAVFQKDEMVDIIGVTKGKGYEG 231
Score = 159 bits (401), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 76/123 (61%), Positives = 89/123 (72%), Gaps = 7/123 (5%)
Query: 430 GIHTKDGKVSVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTEL 489
G+ G V +RW +LPRKTH+GLRKVACIGAWHP+RV +TVARAGQ GYHHRTE+
Sbjct: 222 GVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTEM 281
Query: 490 FLCKKKYLSM----VIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKR 545
KK M + A T++D TEK ITPMGGFPHYG V D+LMIKGCC+GPKKR
Sbjct: 282 ---NKKIYKMGKSGQESHEACTEFDRTEKDITPMGGFPHYGVVKGDYLMIKGCCVGPKKR 338
Query: 546 VIT 548
V+T
Sbjct: 339 VVT 341
Score = 158 bits (400), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 74/121 (61%), Positives = 91/121 (75%), Gaps = 2/121 (1%)
Query: 308 MKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXX 367
MK LK QKKAHLMEIQ+NGG++ADK+ + + E+ +PV VF +DEM+D I
Sbjct: 171 MKGLK--QKKAHLMEIQVNGGTIADKVDYGYKFFEKEVPVEAVFQKDEMVDIIGVTKGKG 228
Query: 368 XXXXXSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRM 427
+RW +LPRKTH+GLRKVACIGAWHP+RV +TVARAGQ GYHHRTE+NKKIY+M
Sbjct: 229 YEGVVTRWGVTRLPRKTHRGLRKVACIGAWHPARVSYTVARAGQNGYHHRTEMNKKIYKM 288
Query: 428 G 428
G
Sbjct: 289 G 289
Score = 73.9 bits (180), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 31/55 (56%), Positives = 43/55 (78%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECV 616
AHLMEIQ+NGG++ADK+ + + E+ +PV VF +DEM+D IGVTKGKG++ V
Sbjct: 179 AHLMEIQVNGGTIADKVDYGYKFFEKEVPVEAVFQKDEMVDIIGVTKGKGYEGVV 233
>pdb|4A17|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 391
Score = 256 bits (655), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 140/283 (49%), Positives = 183/283 (64%), Gaps = 45/283 (15%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRKF APRHGS+GF P++R+ HRG+ + FPKDDP+K HLTAF G+KAGMTHI+RE D
Sbjct: 2 SHRKFEAPRHGSLGFRPRRRTRHHRGRCRSFPKDDPSKKPHLTAFTGFKAGMTHILREVD 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
R GS+ NKKE+VEAVT++E PPM IVGV+GY++TP GLR+ TVWA+ + ++RFYKN
Sbjct: 62 RSGSRHNKKEVVEAVTVIECPPMTIVGVVGYIDTPRGLRALTTVWAKTIDNNTKKRFYKN 121
Query: 159 WYKSRQKAFTKASKKWQDKLGKKTIAQD--LRKMAKYCKVIRVIAHTXXXXXXXXXXXXX 216
W S +KAFT K + K AQD L+++ KYC V+RVIAHT
Sbjct: 122 WANSNKKAFTHHEKNFDQK------AQDLLLKRIEKYCSVVRVIAHT------------- 162
Query: 217 XTKDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ 276
M L RQKK H++EIQ+NGG VA+K+A+A+ LE+
Sbjct: 163 -----------------------NMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEK 199
Query: 277 PIPVGQVFAQDEMIDCIGVTKGKGFKGEMIAMKLLKKRQKKAH 319
+ V +FA++EM+D +GVTKGKGF G +I +K QKK H
Sbjct: 200 EVKVDSIFAENEMLDVLGVTKGKGFAG-VIKRFGVKHLQKKTH 241
Score = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 73/123 (59%), Positives = 88/123 (71%), Gaps = 8/123 (6%)
Query: 430 GIHTKDGKVSVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTEL 489
G+ G V R+ K L +KTH+G RKV CIGAWHPSR++FTV RAGQ GYHHRTE
Sbjct: 217 GVTKGKGFAGVIKRFGVKHLQKKTHRGYRKVGCIGAWHPSRIRFTVPRAGQLGYHHRTET 276
Query: 490 FLCKKKYLSMVIK----NNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKR 545
K + V K +NAST D+T+K+ITP+GGFPHYG V NDF+MIKGCC+GPKKR
Sbjct: 277 ----NKKVYRVGKGDDASNASTAGDVTDKAITPLGGFPHYGVVKNDFIMIKGCCVGPKKR 332
Query: 546 VIT 548
V+T
Sbjct: 333 VLT 335
Score = 144 bits (363), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 66/123 (53%), Positives = 87/123 (70%)
Query: 308 MKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXX 367
M L RQKK H++EIQ+NGG VA+K+A+A+ LE+ + V +FA++EM+D +
Sbjct: 164 MSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEKEVKVDSIFAENEMLDVLGVTKGKG 223
Query: 368 XXXXXSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRM 427
R+ K L +KTH+G RKV CIGAWHPSR++FTV RAGQ GYHHRTE NKK+YR+
Sbjct: 224 FAGVIKRFGVKHLQKKTHRGYRKVGCIGAWHPSRIRFTVPRAGQLGYHHRTETNKKVYRV 283
Query: 428 GAG 430
G G
Sbjct: 284 GKG 286
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 31/68 (45%), Positives = 45/68 (66%)
Query: 545 RVITXXXXXXXXXXXXXAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCI 604
RVI H++EIQ+NGG VA+K+A+A+ LE+ + V +FA++EM+D +
Sbjct: 157 RVIAHTNMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEKEVKVDSIFAENEMLDVL 216
Query: 605 GVTKGKGF 612
GVTKGKGF
Sbjct: 217 GVTKGKGF 224
>pdb|1S1I|C Chain C, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 386
Score = 251 bits (640), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 144/266 (54%), Positives = 183/266 (68%), Gaps = 40/266 (15%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRK+ APRHG +GF P+KR+A R +VK FPKDD +KPV LT+F+GYKAGMT IVR+ D
Sbjct: 1 SHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLD 60
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
RPGSK +K+E+VEAVT+++TPP+V+VGV+GYVETP GLRS TVWAEHLS E +RRFYKN
Sbjct: 61 RPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKN 120
Query: 159 WYKSRQKAFTKASKKW-QDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXX 217
WYKS++KAFTK S K+ QD G I ++L ++ KY V+RV+ HT
Sbjct: 121 WYKSKKKAFTKYSAKYAQDGAG---IERELARIKKYASVVRVLVHT-------------- 163
Query: 218 TKDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP 277
Q++ QKKAHL EIQLNGGS+++K+ WAR+H E+
Sbjct: 164 ----------------------QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKT 201
Query: 278 IPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ V VF Q+EMID I VTKG GF+G
Sbjct: 202 VAVDSVFEQNEMIDAIAVTKGHGFEG 227
Score = 160 bits (404), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 74/125 (59%), Positives = 90/125 (72%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXXSR 374
QKKAHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I R
Sbjct: 172 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHR 231
Query: 375 WHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAGIHTK 434
W TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT +N KIYR+G G
Sbjct: 232 WGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEA 291
Query: 435 DGKVS 439
+G S
Sbjct: 292 NGATS 296
Score = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 65/109 (59%), Positives = 83/109 (76%)
Query: 440 VTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKKYLSM 499
VT RW TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT + +
Sbjct: 228 VTHRWGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKG 287
Query: 500 VIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVIT 548
+ N +T +D T+K+ITPMGGF HYGE+ NDF+M+KGC G +KR++T
Sbjct: 288 DDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVT 336
Score = 79.3 bits (194), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 33/56 (58%), Positives = 42/56 (75%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECVH 617
AHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I VTKG GF+ H
Sbjct: 175 AHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTH 230
>pdb|3O58|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|B Chain B, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 387
Score = 251 bits (640), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 144/266 (54%), Positives = 183/266 (68%), Gaps = 40/266 (15%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRK+ APRHG +GF P+KR+A R +VK FPKDD +KPV LT+F+GYKAGMT IVR+ D
Sbjct: 2 SHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLD 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
RPGSK +K+E+VEAVT+++TPP+V+VGV+GYVETP GLRS TVWAEHLS E +RRFYKN
Sbjct: 62 RPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKN 121
Query: 159 WYKSRQKAFTKASKKW-QDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXX 217
WYKS++KAFTK S K+ QD G I ++L ++ KY V+RV+ HT
Sbjct: 122 WYKSKKKAFTKYSAKYAQDGAG---IERELARIKKYASVVRVLVHT-------------- 164
Query: 218 TKDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP 277
Q++ QKKAHL EIQLNGGS+++K+ WAR+H E+
Sbjct: 165 ----------------------QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKT 202
Query: 278 IPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ V VF Q+EMID I VTKG GF+G
Sbjct: 203 VAVDSVFEQNEMIDAIAVTKGHGFEG 228
Score = 160 bits (404), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 74/125 (59%), Positives = 90/125 (72%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXXSR 374
QKKAHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I R
Sbjct: 173 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHR 232
Query: 375 WHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAGIHTK 434
W TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT +N KIYR+G G
Sbjct: 233 WGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEA 292
Query: 435 DGKVS 439
+G S
Sbjct: 293 NGATS 297
Score = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 65/109 (59%), Positives = 83/109 (76%)
Query: 440 VTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKKYLSM 499
VT RW TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT + +
Sbjct: 229 VTHRWGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKG 288
Query: 500 VIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVIT 548
+ N +T +D T+K+ITPMGGF HYGE+ NDF+M+KGC G +KR++T
Sbjct: 289 DDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVT 337
Score = 79.3 bits (194), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 33/56 (58%), Positives = 42/56 (75%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECVH 617
AHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I VTKG GF+ H
Sbjct: 176 AHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTH 231
>pdb|3IZS|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
Length = 388
Score = 251 bits (640), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 144/266 (54%), Positives = 183/266 (68%), Gaps = 40/266 (15%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SHRK+ APRHG +GF P+KR+A R +VK FPKDD +KPV LT+F+GYKAGMT IVR+ D
Sbjct: 2 SHRKYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLD 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
RPGSK +K+E+VEAVT+++TPP+V+VGV+GYVETP GLRS TVWAEHLS E +RRFYKN
Sbjct: 62 RPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKN 121
Query: 159 WYKSRQKAFTKASKKW-QDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXX 217
WYKS++KAFTK S K+ QD G I ++L ++ KY V+RV+ HT
Sbjct: 122 WYKSKKKAFTKYSAKYAQDGAG---IERELARIKKYASVVRVLVHT-------------- 164
Query: 218 TKDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP 277
Q++ QKKAHL EIQLNGGS+++K+ WAR+H E+
Sbjct: 165 ----------------------QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKT 202
Query: 278 IPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ V VF Q+EMID I VTKG GF+G
Sbjct: 203 VAVDSVFEQNEMIDAIAVTKGHGFEG 228
Score = 160 bits (404), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 74/125 (59%), Positives = 90/125 (72%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXXSR 374
QKKAHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I R
Sbjct: 173 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHR 232
Query: 375 WHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAGIHTK 434
W TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT +N KIYR+G G
Sbjct: 233 WGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEA 292
Query: 435 DGKVS 439
+G S
Sbjct: 293 NGATS 297
Score = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 65/109 (59%), Positives = 83/109 (76%)
Query: 440 VTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKKYLSM 499
VT RW TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT + +
Sbjct: 229 VTHRWGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKG 288
Query: 500 VIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVIT 548
+ N +T +D T+K+ITPMGGF HYGE+ NDF+M+KGC G +KR++T
Sbjct: 289 DDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVT 337
Score = 79.3 bits (194), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 33/56 (58%), Positives = 42/56 (75%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECVH 617
AHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I VTKG GF+ H
Sbjct: 176 AHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTH 231
>pdb|3JYW|C Chain C, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 362
Score = 244 bits (624), Expect = 7e-65, Method: Compositional matrix adjust.
Identities = 141/263 (53%), Positives = 180/263 (68%), Gaps = 40/263 (15%)
Query: 42 KFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPG 101
K+ APRHG +GF P+KR+A R +VK FPKDD +KPV LT+F+GYKAGMT IVR+ DRPG
Sbjct: 1 KYEAPRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIVRDLDRPG 60
Query: 102 SKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKNWYK 161
SK +K+E+VEAVT+++TPP+V+VGV+GYVETP GLRS TVWAEHLS E +RRFYKNWYK
Sbjct: 61 SKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFYKNWYK 120
Query: 162 SRQKAFTKASKKW-QDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXTKD 220
S++KAFTK S K+ QD G I ++L ++ KY V+RV+ HT
Sbjct: 121 SKKKAFTKYSAKYAQDGAG---IERELARIKKYASVVRVLVHT----------------- 160
Query: 221 QPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 280
Q++ QKKAHL EIQLNGGS+++K+ WAR+H E+ + V
Sbjct: 161 -------------------QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKTVAV 201
Query: 281 GQVFAQDEMIDCIGVTKGKGFKG 303
VF Q+EMID I VTKG GF+G
Sbjct: 202 DSVFEQNEMIDAIAVTKGHGFEG 224
Score = 160 bits (404), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 74/125 (59%), Positives = 90/125 (72%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXXSR 374
QKKAHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I R
Sbjct: 169 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHR 228
Query: 375 WHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAGIHTK 434
W TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT +N KIYR+G G
Sbjct: 229 WGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKGDDEA 288
Query: 435 DGKVS 439
+G S
Sbjct: 289 NGATS 293
Score = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 65/109 (59%), Positives = 83/109 (76%)
Query: 440 VTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKKYLSM 499
VT RW TKKLPRKTH+GLRKVACIGAWHP+ V ++VARAGQ+GYH RT + +
Sbjct: 225 VTHRWGTKKLPRKTHRGLRKVACIGAWHPAHVMWSVARAGQRGYHSRTSINHKIYRVGKG 284
Query: 500 VIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVIT 548
+ N +T +D T+K+ITPMGGF HYGE+ NDF+M+KGC G +KR++T
Sbjct: 285 DDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVT 333
Score = 79.3 bits (194), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 33/56 (58%), Positives = 42/56 (75%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECVH 617
AHL EIQLNGGS+++K+ WAR+H E+ + V VF Q+EMID I VTKG GF+ H
Sbjct: 172 AHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTH 227
>pdb|3ZF7|FF Chain f, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 429
Score = 236 bits (602), Expect = 3e-62, Method: Compositional matrix adjust.
Identities = 125/268 (46%), Positives = 163/268 (60%), Gaps = 39/268 (14%)
Query: 39 SHRKFSAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREAD 98
SH KF PRHG +GF P+KRS + RG+ + FPKDDP++ HLT+F+ YKAGMTHIVR+ D
Sbjct: 2 SHCKFEHPRHGHLGFLPRKRSRQIRGRARSFPKDDPSQKPHLTSFMVYKAGMTHIVRDVD 61
Query: 99 RPGSKINKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKN 158
RPGSK+NKKE+VE VTILE PPMV+VG++GY +TP G ++ TVWA H S E RRRFYKN
Sbjct: 62 RPGSKVNKKEVVEPVTILEAPPMVVVGIVGYRQTPVGHKTIGTVWAHHTSVEFRRRFYKN 121
Query: 159 WYKSRQKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXT 218
W +S Q AFTK + + G+ A+ L+ K +IRV+AHT
Sbjct: 122 WKQSAQLAFTKRKQFARTTEGRLAEARTLKAFEKKADIIRVVAHT--------------- 166
Query: 219 KDQPIQSNVNKTQPDSHESHVQMKLLKKRQ---KKAHLMEIQLNGGSVADKIAWARQHLE 275
Q++ L+ + KKAH+ EIQ+NGG++A KI A+ LE
Sbjct: 167 ---------------------QLRKLRNNRVGVKKAHVSEIQINGGTIAQKIELAKSLLE 205
Query: 276 QPIPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ + + VF Q E D VTKG GF G
Sbjct: 206 KEVRIDSVFQQSEACDVCAVTKGHGFTG 233
Score = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 73/117 (62%), Positives = 83/117 (70%), Gaps = 6/117 (5%)
Query: 436 GKVSVTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKK 495
G V RW LPRKTH+GLRKVACIGAWHPSRV +TVARAGQ GYHHRT L KK
Sbjct: 230 GFTGVVKRWGVACLPRKTHRGLRKVACIGAWHPSRVMYTVARAGQHGYHHRTH--LNKKI 287
Query: 496 Y-LSMVIK---NNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVIT 548
Y L + N A+T YDLT K+ITPMGGF YG V ND++M+KG GP++RVIT
Sbjct: 288 YQLGRAVSMEPNQATTAYDLTAKTITPMGGFVGYGTVRNDYVMLKGSVAGPRRRVIT 344
Score = 136 bits (342), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 65/116 (56%), Positives = 78/116 (67%)
Query: 316 KKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXXSRW 375
KKAH+ EIQ+NGG++A KI A+ LE+ + + VF Q E D RW
Sbjct: 179 KKAHVSEIQINGGTIAQKIELAKSLLEKEVRIDSVFQQSEACDVCAVTKGHGFTGVVKRW 238
Query: 376 HTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAGI 431
LPRKTH+GLRKVACIGAWHPSRV +TVARAGQ GYHHRT LNKKIY++G +
Sbjct: 239 GVACLPRKTHRGLRKVACIGAWHPSRVMYTVARAGQHGYHHRTHLNKKIYQLGRAV 294
Score = 55.8 bits (133), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/55 (47%), Positives = 34/55 (61%)
Query: 562 AHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKECV 616
AH+ EIQ+NGG++A KI A+ LE+ + + VF Q E D VTKG GF V
Sbjct: 181 AHVSEIQINGGTIAQKIELAKSLLEKEVRIDSVFQQSEACDVCAVTKGHGFTGVV 235
>pdb|1GIY|E Chain E, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
pdb|1ML5|EE Chain e, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|E Chain E, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4.
pdb|2B66|E Chain E, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf1, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400
pdb|2B9N|E Chain E, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf2, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400.
pdb|2B9P|E Chain E, 50s Ribosomal Subunit From A Crystal Structure Of The
Ribosome In Complex With Trnas And Mrna With A Stop
Codon In The A-Site. This File Contains The 50s Subunit
From A Crystal Structure Of The Ribosome In Complex With
Trnas And Mrna With A Stop Codon In The A-Site And Is
Described In Remark 400
Length = 338
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 83/277 (29%), Positives = 115/277 (41%), Gaps = 54/277 (19%)
Query: 44 SAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPGSK 103
S PR GS+GF P+KRS + +P DD V F GYKAGMTH+V D P S
Sbjct: 4 SRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQPGVQ--GFAGYKAGMTHVVLVNDEPNSP 61
Query: 104 INKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKNWYKSR 163
E VT++ETPPM V + Y +TP+G R VW + E R
Sbjct: 62 REGMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDRTL-------- 113
Query: 164 QKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXTKDQPI 223
A +D++ A DL + R+I HT
Sbjct: 114 SDRLDHALDIVEDQIRDAHEAGDLGDL-------RLITHTV------------------- 147
Query: 224 QSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVG 281
PD+ S +KK +ME ++ GGSV+D++ A +E +
Sbjct: 148 --------PDAVPS--------VPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMN 191
Query: 282 QVFAQDEMIDCIGVTKGKGFKGEMIAMKLLKKRQKKA 318
+F E D GVTKGKG +G + + K++ K A
Sbjct: 192 DIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHA 228
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 66/133 (49%), Gaps = 21/133 (15%)
Query: 422 KKIYRMG-----AGIHTKDGKVSVTSRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFT 474
I+R G AG+ G RW +K K +G R+ + +G W+PSRV+ T
Sbjct: 191 NDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRST 250
Query: 475 VARAGQKGYHHRTELFLCKKKYLSMVIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLM 534
V + GQ GYH RTEL K+ + + + + D GGF +YGEV+ + +
Sbjct: 251 VPQQGQTGYHQRTEL---NKRLIDIGEGDEPTVD-----------GGFVNYGEVDGPYTL 296
Query: 535 IKGCCMGPKKRVI 547
+KG GP KR++
Sbjct: 297 VKGSVPGPDKRLV 309
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 65/127 (51%), Gaps = 5/127 (3%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQPI--PVGQVFAQDEMIDCIXXXXXXXXXXXX 372
+KK +ME ++ GGSV+D++ A +E + +F E D
Sbjct: 156 KKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 215
Query: 373 SRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAG 430
RW +K K +G R+ + +G W+PSRV+ TV + GQ GYH RTELNK++ +G G
Sbjct: 216 KRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEG 275
Query: 431 IH-TKDG 436
T DG
Sbjct: 276 DEPTVDG 282
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 564 LMEIQLNGGSVADKIAWARQHLEQPI--PVGQVFAQDEMIDCIGVTKGKGFKECV 616
+ME ++ GGSV+D++ A +E + +F E D GVTKGKG + V
Sbjct: 161 VMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 215
>pdb|3J21|C Chain C, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 365
Score = 99.4 bits (246), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 78/266 (29%), Positives = 123/266 (46%), Gaps = 48/266 (18%)
Query: 46 PRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPGSKIN 105
PR GS+GF P+KR+ +++ +PK+ V + F GYKAGMTHI+ D PG N
Sbjct: 7 PRRGSLGFSPRKRAKSIVPRIRSWPKETE---VRMLGFAGYKAGMTHILMIDDEPGL-TN 62
Query: 106 KKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQE---CRRRFYK----- 157
KEI VTI+ETPP+ + G+ Y GL + V + + R K
Sbjct: 63 GKEIFMPVTIIETPPLRVFGIRAYRMGYLGLETATEVIVPDFPLDNYPAKERKGKPKPKM 122
Query: 158 NWYKSRQKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXX 217
+YK ++ K + ++ ++ + Q L M K +++ V A
Sbjct: 123 TFYKLLERRIATLPKNYTQEMFEQKLGQ-LEDMIKEGEIVDVRA---------------- 165
Query: 218 TKDQPIQSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP 277
+ TQP + K +KK +ME + G SV +K + ++ L +
Sbjct: 166 ---------IVATQP----------WVIKLKKKPEVMEYAIGGTSVEEKFNYIKEKLGKE 206
Query: 278 IPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ VG+V + E++D I VTKGKG +G
Sbjct: 207 LRVGEVLKEGELLDVIAVTKGKGTQG 232
Score = 99.0 bits (245), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 53/105 (50%), Positives = 62/105 (59%), Gaps = 4/105 (3%)
Query: 443 RWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELFLCKKKYLSMVIK 502
RW K K KG RKV IG WHP+RV +TV AGQ G+HHRTEL K L + +
Sbjct: 236 RWGIKLRAHKDSKGRRKVGSIGPWHPARVMWTVPMAGQMGFHHRTEL----NKRLIAIGE 291
Query: 503 NNASTDYDLTEKSITPMGGFPHYGEVNNDFLMIKGCCMGPKKRVI 547
N + TE ITP GGFPHYG V +DF+MI G G KR+I
Sbjct: 292 NGKLKLDENTEIEITPKGGFPHYGIVRSDFMMIAGSVPGAIKRII 336
Score = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 47/116 (40%), Positives = 66/116 (56%)
Query: 313 KRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIXXXXXXXXXXXX 372
K +KK +ME + G SV +K + ++ L + + VG+V + E++D I
Sbjct: 175 KLKKKPEVMEYAIGGTSVEEKFNYIKEKLGKELRVGEVLKEGELLDVIAVTKGKGTQGPV 234
Query: 373 SRWHTKKLPRKTHKGLRKVACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMG 428
RW K K KG RKV IG WHP+RV +TV AGQ G+HHRTELNK++ +G
Sbjct: 235 KRWGIKLRAHKDSKGRRKVGSIGPWHPARVMWTVPMAGQMGFHHRTELNKRLIAIG 290
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 563 HLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKG 611
+ME + G SV +K + ++ L + + VG+V + E++D I VTKGKG
Sbjct: 181 EVMEYAIGGTSVEEKFNYIKEKLGKELRVGEVLKEGELLDVIAVTKGKG 229
>pdb|1S72|B Chain B, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|B Chain B, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|B Chain B, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|B Chain B, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|B Chain B, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|B Chain B, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|B Chain B, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|B Chain B, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|B Chain B, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|B Chain B, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|B Chain B, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|B Chain B, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|B Chain B, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|B Chain B, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|B Chain B, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|B Chain B, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|B Chain B, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|B Chain B, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|B Chain B, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|B Chain B, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|B Chain B, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2QA4|B Chain B, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|B Chain B, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|B Chain B, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|B Chain B, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|B Chain B, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|B Chain B, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|B Chain B, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|B Chain B, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|B Chain B, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|B Chain B, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|B Chain B, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 338
Score = 98.2 bits (243), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 81/277 (29%), Positives = 114/277 (41%), Gaps = 54/277 (19%)
Query: 44 SAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPGSK 103
S PR GS+GF P+KRS + +P DD V F GYKAGMTH+V D P S
Sbjct: 5 SRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQPGVQ--GFAGYKAGMTHVVLVNDEPNSP 62
Query: 104 INKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKNWYKSR 163
E VT++ETPPM V + Y +TP+G R VW + E R
Sbjct: 63 REGMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDR---------- 112
Query: 164 QKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXTKDQPI 223
T + D + +D + +R+I HT
Sbjct: 113 ----TLDVPEDHDPDAAEEQIRDAHEAGDLGD-LRLITHTV------------------- 148
Query: 224 QSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVG 281
PD+ S +KK +ME ++ GGSV+D++ A +E +
Sbjct: 149 --------PDAVPS--------VPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMN 192
Query: 282 QVFAQDEMIDCIGVTKGKGFKGEMIAMKLLKKRQKKA 318
+F E D GVTKGKG +G + + K++ K A
Sbjct: 193 DIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHA 229
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 66/133 (49%), Gaps = 21/133 (15%)
Query: 422 KKIYRMG-----AGIHTKDGKVSVTSRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFT 474
I+R G AG+ G RW +K K +G R+ + +G W+PSRV+ T
Sbjct: 192 NDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRST 251
Query: 475 VARAGQKGYHHRTELFLCKKKYLSMVIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLM 534
V + GQ GYH RTEL K+ + + + + D GGF +YGEV+ + +
Sbjct: 252 VPQQGQTGYHQRTEL---NKRLIDIGEGDEPTVD-----------GGFVNYGEVDGPYTL 297
Query: 535 IKGCCMGPKKRVI 547
+KG GP KR++
Sbjct: 298 VKGSVPGPDKRLV 310
Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 65/127 (51%), Gaps = 5/127 (3%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIXXXXXXXXXXXX 372
+KK +ME ++ GGSV+D++ A +E + +F E D
Sbjct: 157 KKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 216
Query: 373 SRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAG 430
RW +K K +G R+ + +G W+PSRV+ TV + GQ GYH RTELNK++ +G G
Sbjct: 217 KRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEG 276
Query: 431 IH-TKDG 436
T DG
Sbjct: 277 DEPTVDG 283
Score = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 564 LMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIGVTKGKGFKECV 616
+ME ++ GGSV+D++ A +E + +F E D GVTKGKG + V
Sbjct: 162 VMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 216
>pdb|1JJ2|B Chain B, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|B Chain B, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|D Chain D, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|D Chain D, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|D Chain D, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|D Chain D, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|D Chain D, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|D Chain D, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|D Chain D, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|D Chain D, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|D Chain D, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|D Chain D, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|D Chain D, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|D Chain D, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|D Chain D, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|B Chain B, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|B Chain B, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|B Chain B, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|2OTL|B Chain B, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|3CXC|B Chain B, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|B Chain B, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|B Chain B, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|B Chain B, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|B Chain B, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 337
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 81/277 (29%), Positives = 114/277 (41%), Gaps = 54/277 (19%)
Query: 44 SAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPGSK 103
S PR GS+GF P+KRS + +P DD V F GYKAGMTH+V D P S
Sbjct: 4 SRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQPGVQ--GFAGYKAGMTHVVLVNDEPNSP 61
Query: 104 INKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKNWYKSR 163
E VT++ETPPM V + Y +TP+G R VW + E R
Sbjct: 62 REGMEETVPVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDR---------- 111
Query: 164 QKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXTKDQPI 223
T + D + +D + +R+I HT
Sbjct: 112 ----TLDVPEDHDPDAAEEQIRDAHEAGDLGD-LRLITHTV------------------- 147
Query: 224 QSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVG 281
PD+ S +KK +ME ++ GGSV+D++ A +E +
Sbjct: 148 --------PDAVPS--------VPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMN 191
Query: 282 QVFAQDEMIDCIGVTKGKGFKGEMIAMKLLKKRQKKA 318
+F E D GVTKGKG +G + + K++ K A
Sbjct: 192 DIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHA 228
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 66/133 (49%), Gaps = 21/133 (15%)
Query: 422 KKIYRMG-----AGIHTKDGKVSVTSRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFT 474
I+R G AG+ G RW +K K +G R+ + +G W+PSRV+ T
Sbjct: 191 NDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRST 250
Query: 475 VARAGQKGYHHRTELFLCKKKYLSMVIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLM 534
V + GQ GYH RTEL K+ + + + + D GGF +YGEV+ + +
Sbjct: 251 VPQQGQTGYHQRTEL---NKRLIDIGEGDEPTVD-----------GGFVNYGEVDGPYTL 296
Query: 535 IKGCCMGPKKRVI 547
+KG GP KR++
Sbjct: 297 VKGSVPGPDKRLV 309
Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 65/127 (51%), Gaps = 5/127 (3%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIXXXXXXXXXXXX 372
+KK +ME ++ GGSV+D++ A +E + +F E D
Sbjct: 156 KKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 215
Query: 373 SRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAG 430
RW +K K +G R+ + +G W+PSRV+ TV + GQ GYH RTELNK++ +G G
Sbjct: 216 KRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEG 275
Query: 431 IH-TKDG 436
T DG
Sbjct: 276 DEPTVDG 282
Score = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 564 LMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIGVTKGKGFKECV 616
+ME ++ GGSV+D++ A +E + +F E D GVTKGKG + V
Sbjct: 161 VMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 215
>pdb|1FFK|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 337
Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 82/277 (29%), Positives = 115/277 (41%), Gaps = 55/277 (19%)
Query: 44 SAPRHGSMGFYPKKRSARHRGKVKCFPKDDPTKPVHLTAFIGYKAGMTHIVREADRPGSK 103
S PR GS+GF P+KRS + +P DD V F GYKAGMTH+V D P S
Sbjct: 4 SRPRKGSLGFGPRKRSTSETPRFNSWPSDDGQPGVQ--GFAGYKAGMTHVVLVNDEPNSP 61
Query: 104 INKKEIVEAVTILETPPMVIVGVIGYVETPHGLRSFKTVWAEHLSQECRRRFYKNWYKSR 163
E V VT++ETPPM V + Y +TP+G R VW + E R
Sbjct: 62 REGMETV-PVTVIETPPMRAVALRAYEDTPYGQRPLTEVWTDEFHSELDR---------- 110
Query: 164 QKAFTKASKKWQDKLGKKTIAQDLRKMAKYCKVIRVIAHTXXXXXXXXXXXXXXTKDQPI 223
T + D + +D + +R+I HT
Sbjct: 111 ----TLDVPEDHDPDAAEEQIRDAHEAGDLGD-LRLITHTV------------------- 146
Query: 224 QSNVNKTQPDSHESHVQMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVG 281
PD+ S +KK +ME ++ GGSV+D++ A +E +
Sbjct: 147 --------PDAVPS--------VPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMN 190
Query: 282 QVFAQDEMIDCIGVTKGKGFKGEMIAMKLLKKRQKKA 318
+F E D GVTKGKG +G + + K++ K A
Sbjct: 191 DIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHA 227
Score = 71.2 bits (173), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 66/133 (49%), Gaps = 21/133 (15%)
Query: 422 KKIYRMG-----AGIHTKDGKVSVTSRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFT 474
I+R G AG+ G RW +K K +G R+ + +G W+PSRV+ T
Sbjct: 190 NDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRST 249
Query: 475 VARAGQKGYHHRTELFLCKKKYLSMVIKNNASTDYDLTEKSITPMGGFPHYGEVNNDFLM 534
V + GQ GYH RTEL K+ + + + + D GGF +YGEV+ + +
Sbjct: 250 VPQQGQTGYHQRTEL---NKRLIDIGEGDEPTVD-----------GGFVNYGEVDGPYTL 295
Query: 535 IKGCCMGPKKRVI 547
+KG GP KR++
Sbjct: 296 VKGSVPGPDKRLV 308
Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 65/127 (51%), Gaps = 5/127 (3%)
Query: 315 QKKAHLMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIXXXXXXXXXXXX 372
+KK +ME ++ GGSV+D++ A +E + +F E D
Sbjct: 155 KKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 214
Query: 373 SRWHTKKLPRK-THKGLRK-VACIGAWHPSRVQFTVARAGQKGYHHRTELNKKIYRMGAG 430
RW +K K +G R+ + +G W+PSRV+ TV + GQ GYH RTELNK++ +G G
Sbjct: 215 KRWGVQKRKGKHARQGWRRRIGNLGPWNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEG 274
Query: 431 IH-TKDG 436
T DG
Sbjct: 275 DEPTVDG 281
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 564 LMEIQLNGGSVADKIAWARQHLEQ--PIPVGQVFAQDEMIDCIGVTKGKGFKECV 616
+ME ++ GGSV+D++ A +E + +F E D GVTKGKG + V
Sbjct: 160 VMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPV 214
>pdb|3BBO|F Chain F, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 259
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 273 HLEQPIPVGQVFAQDEMIDCIGVTKGKGFKG 303
+ Q + G++F + +++D G T GKGF+G
Sbjct: 134 EVTQKLDFGELFKEGDLVDVSGTTIGKGFQG 164
>pdb|1PNU|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|B Chain B, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|E Chain E, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 205
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 283 VFAQDEMIDCIGVTKGKGFKGEM 305
+FA+ E ID G +KGKG +G M
Sbjct: 95 IFAEGEKIDATGTSKGKGTQGVM 117
>pdb|1NKW|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|B Chain B, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|B Chain B, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2OGM|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Sb-571519
pdb|2OGN|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Sb-280080
pdb|2OGO|B Chain B, The Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans Complexed With The Pleuromutilin
Derivative Retapamulin (Sb-275833)
pdb|2ZJP|B Chain B, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|B Chain B, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|B Chain B, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|B Chain B, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|B Chain B, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|B Chain B, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|B Chain B, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 211
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 283 VFAQDEMIDCIGVTKGKGFKGEM 305
+FA+ E ID G +KGKG +G M
Sbjct: 95 IFAEGEKIDATGTSKGKGTQGVM 117
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.134 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,200,535
Number of Sequences: 62578
Number of extensions: 704618
Number of successful extensions: 1510
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1389
Number of HSP's gapped (non-prelim): 83
length of query: 630
length of database: 14,973,337
effective HSP length: 105
effective length of query: 525
effective length of database: 8,402,647
effective search space: 4411389675
effective search space used: 4411389675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)